|
| Status |
Public on Sep 06, 2017 |
| Title |
∆zwf parent Sample 2 |
| Sample type |
SRA |
| |
|
| Source name |
Escherichia coli cell lysate
|
| Organism |
Escherichia coli |
| Characteristics |
strain: BW25113
|
| Growth protocol |
cells were grown in M9 glucose (0.4% w/v)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated using standard Trizol lysis and aqueous extraction, followed by further purification using a Qiagen RNAeasy kit.
library construction followed Illumina manufacturer protocol for bacteria using the Nextera XT DNA Library Preparation Kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
base calls with quality metrics were generated using the HiSeq 2500 Control software
sequences were aligned to the parent E. coli strain genome template and transcript levels were quantified for triplicate groups of each primary deletion strain and synthetic rescue (i.e. sup) strain using Rockhopper (version 2.0.3)
transcript abundance was quantified using rockhopper
Genome_build: E. coli strain BW25113
|
| |
|
| Submission date |
Aug 22, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Sean Crosson |
| E-mail(s) |
crosson4@msu.edu
|
| Phone |
5178845345
|
| Organization name |
Michigan State University
|
| Department |
Dept. Microbiology and Molecular Genetics
|
| Street address |
567 Wilson Rd
|
| City |
East Lansing |
| State/province |
Michigan |
| ZIP/Postal code |
48824 |
| Country |
USA |
| |
|
| Platform ID |
GPL18133 |
| Series (1) |
| GSE85914 |
Measuring gene expression profiles of E. coli synthetic rescue strains |
|
| Relations |
| BioSample |
SAMN05605141 |
| SRA |
SRX2038320 |
